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Protein

tRNA(Ile)-lysidine synthase

Gene

tilS

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Ligates lysine onto the cytidine present at position 34 of the AUA codon-specific tRNA(Ile) that contains the anticodon CAU, in an ATP-dependent manner. Cytidine is converted to lysidine, thus changing the amino acid specificity of the tRNA from methionine to isoleucine. This enzyme is essential for viability.

Catalytic activityi

(tRNA(Ile2))-cytidine(34) + L-lysine + ATP = (tRNA(Ile2))-lysidine(34) + AMP + diphosphate + H2O.1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi20 – 25ATPSequence analysis6

GO - Molecular functioni

  • ATP binding Source: UniProtKB-HAMAP
  • tRNA(Ile)-lysidine synthase activity Source: EcoCyc

GO - Biological processi

  • tRNA modification Source: EcoliWiki
  • wobble base lysidine biosynthesis Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

tRNA processing

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciEcoCyc:G6096-MONOMER.
ECOL316407:JW0183-MONOMER.
MetaCyc:G6096-MONOMER.
BRENDAi6.3.4.19. 2026.

Names & Taxonomyi

Protein namesi
Recommended name:
tRNA(Ile)-lysidine synthase (EC:6.3.4.19)
Alternative name(s):
tRNA(Ile)-2-lysyl-cytidine synthase
tRNA(Ile)-lysidine synthetase
Gene namesi
Name:tilS
Synonyms:mesJ, yaeN
Ordered Locus Names:b0188, JW0183
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13220. tilS.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001816891 – 432tRNA(Ile)-lysidine synthaseAdd BLAST432

Proteomic databases

PaxDbiP52097.
PRIDEiP52097.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
itself3EBI-556745,EBI-556745

Protein-protein interaction databases

BioGridi4261685. 154 interactors.
DIPiDIP-10190N.
IntActiP52097. 17 interactors.
MINTiMINT-1261006.
STRINGi511145.b0188.

Structurei

Secondary structure

1432
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi1 – 9Combined sources9
Beta strandi13 – 18Combined sources6
Helixi23 – 36Combined sources14
Beta strandi43 – 49Combined sources7
Helixi57 – 70Combined sources14
Beta strandi75 – 78Combined sources4
Beta strandi85 – 87Combined sources3
Turni88 – 91Combined sources4
Helixi92 – 103Combined sources12
Beta strandi109 – 112Combined sources4
Helixi117 – 128Combined sources12
Turni129 – 131Combined sources3
Helixi136 – 138Combined sources3
Beta strandi142 – 146Combined sources5
Beta strandi149 – 152Combined sources4
Helixi154 – 156Combined sources3
Helixi160 – 169Combined sources10
Helixi180 – 182Combined sources3
Helixi186 – 192Combined sources7
Helixi194 – 201Combined sources8
Helixi205 – 234Combined sources30
Beta strandi237 – 239Combined sources3
Beta strandi241 – 243Combined sources3
Helixi244 – 246Combined sources3
Helixi251 – 264Combined sources14
Helixi272 – 281Combined sources10
Turni282 – 284Combined sources3
Helixi287 – 289Combined sources3
Beta strandi292 – 295Combined sources4
Beta strandi298 – 311Combined sources14
Beta strandi320 – 322Combined sources3
Turni324 – 327Combined sources4
Beta strandi338 – 347Combined sources10
Beta strandi356 – 360Combined sources5
Beta strandi364 – 366Combined sources3
Helixi377 – 384Combined sources8
Helixi388 – 390Combined sources3
Beta strandi396 – 399Combined sources4
Beta strandi402 – 406Combined sources5
Turni407 – 409Combined sources3
Beta strandi410 – 412Combined sources3
Helixi413 – 415Combined sources3
Beta strandi418 – 420Combined sources3
Beta strandi423 – 428Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1NI5X-ray2.65A1-432[»]
ProteinModelPortaliP52097.
SMRiP52097.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP52097.

Family & Domainsi

Domaini

The N-terminal region contains the highly conserved SGGXDS motif, predicted to be a P-loop motif involved in ATP binding.

Sequence similaritiesi

Belongs to the tRNA(Ile)-lysidine synthase family.Curated

Phylogenomic databases

eggNOGiENOG4105D3U. Bacteria.
COG0037. LUCA.
HOGENOMiHOG000236507.
InParanoidiP52097.
KOiK04075.
OMAiDRNFLRQ.
PhylomeDBiP52097.

Family and domain databases

CDDicd01992. PP-ATPase. 1 hit.
Gene3Di3.40.50.620. 1 hit.
HAMAPiMF_01161. tRNA_Ile_lys_synt. 1 hit.
InterProiIPR012796. Lysidine-tRNA-synth_C.
IPR020825. Phe-tRNA_synthase_B3/B4.
IPR014729. Rossmann-like_a/b/a_fold.
IPR011063. TilS/TtcA_N.
IPR012094. tRNA_Ile_lys_synt.
IPR012795. tRNA_Ile_lys_synt_N.
IPR015262. tRNA_Ile_lys_synt_subst-bd.
[Graphical view]
PANTHERiPTHR11807:SF2. PTHR11807:SF2. 1 hit.
PfamiPF01171. ATP_bind_3. 1 hit.
PF09179. TilS. 1 hit.
PF11734. TilS_C. 1 hit.
[Graphical view]
SMARTiSM00977. TilS_C. 1 hit.
[Graphical view]
SUPFAMiSSF56037. SSF56037. 1 hit.
TIGRFAMsiTIGR02433. lysidine_TilS_C. 1 hit.
TIGR02432. lysidine_TilS_N. 1 hit.

Sequencei

Sequence statusi: Complete.

P52097-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTLTLNRQLL TSRQILVAFS GGLDSTVLLH QLVQWRTENP GVALRAIHVH
60 70 80 90 100
HGLSANADAW VTHCENVCQQ WQVPLVVERV QLAQEGLGIE AQARQARYQA
110 120 130 140 150
FARTLLPGEV LVTAQHLDDQ CETFLLALKR GSGPAGLSAM AEVSEFAGTR
160 170 180 190 200
LIRPLLARTR GELVQWARQY DLRWIEDESN QDDSYDRNFL RLRVVPLLQQ
210 220 230 240 250
RWPHFAEATA RSAALCAEQE SLLDELLADD LAHCQSPQGT LQIVPMLAMS
260 270 280 290 300
DARRAAIIRR WLAGQNAPMP SRDALVRIWQ EVALAREDAS PCLRLGAFEI
310 320 330 340 350
RRYQSQLWWI KSVTGQSENI VPWQTWLQPL ELPAGLGSVQ LNAGGDIRPP
360 370 380 390 400
RADEAVSVRF KAPGLLHIVG RNGGRKLKKI WQELGVPPWL RDTTPLLFYG
410 420 430
ETLIAAAGVF VTQEGVAEGE NGVSFVWQKT LS
Length:432
Mass (Da):48,204
Last modified:October 1, 1996 - v1
Checksum:i26946DC7220B5A40
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D49445 Genomic DNA. Translation: BAA08428.1.
Z50870 Genomic DNA. Translation: CAA90751.1.
U70214 Genomic DNA. Translation: AAB08617.1.
U00096 Genomic DNA. Translation: AAC73299.1.
AP009048 Genomic DNA. Translation: BAA77863.1.
BR000032 Genomic DNA. Translation: FAA00003.1.
PIRiD64743.
RefSeqiNP_414730.1. NC_000913.3.
WP_000176549.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73299; AAC73299; b0188.
BAA77863; BAA77863; BAA77863.
GeneIDi944889.
KEGGiecj:JW0183.
eco:b0188.
PATRICi32115487. VBIEscCol129921_0195.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D49445 Genomic DNA. Translation: BAA08428.1.
Z50870 Genomic DNA. Translation: CAA90751.1.
U70214 Genomic DNA. Translation: AAB08617.1.
U00096 Genomic DNA. Translation: AAC73299.1.
AP009048 Genomic DNA. Translation: BAA77863.1.
BR000032 Genomic DNA. Translation: FAA00003.1.
PIRiD64743.
RefSeqiNP_414730.1. NC_000913.3.
WP_000176549.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1NI5X-ray2.65A1-432[»]
ProteinModelPortaliP52097.
SMRiP52097.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261685. 154 interactors.
DIPiDIP-10190N.
IntActiP52097. 17 interactors.
MINTiMINT-1261006.
STRINGi511145.b0188.

Proteomic databases

PaxDbiP52097.
PRIDEiP52097.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73299; AAC73299; b0188.
BAA77863; BAA77863; BAA77863.
GeneIDi944889.
KEGGiecj:JW0183.
eco:b0188.
PATRICi32115487. VBIEscCol129921_0195.

Organism-specific databases

EchoBASEiEB3011.
EcoGeneiEG13220. tilS.

Phylogenomic databases

eggNOGiENOG4105D3U. Bacteria.
COG0037. LUCA.
HOGENOMiHOG000236507.
InParanoidiP52097.
KOiK04075.
OMAiDRNFLRQ.
PhylomeDBiP52097.

Enzyme and pathway databases

BioCyciEcoCyc:G6096-MONOMER.
ECOL316407:JW0183-MONOMER.
MetaCyc:G6096-MONOMER.
BRENDAi6.3.4.19. 2026.

Miscellaneous databases

EvolutionaryTraceiP52097.
PROiP52097.

Family and domain databases

CDDicd01992. PP-ATPase. 1 hit.
Gene3Di3.40.50.620. 1 hit.
HAMAPiMF_01161. tRNA_Ile_lys_synt. 1 hit.
InterProiIPR012796. Lysidine-tRNA-synth_C.
IPR020825. Phe-tRNA_synthase_B3/B4.
IPR014729. Rossmann-like_a/b/a_fold.
IPR011063. TilS/TtcA_N.
IPR012094. tRNA_Ile_lys_synt.
IPR012795. tRNA_Ile_lys_synt_N.
IPR015262. tRNA_Ile_lys_synt_subst-bd.
[Graphical view]
PANTHERiPTHR11807:SF2. PTHR11807:SF2. 1 hit.
PfamiPF01171. ATP_bind_3. 1 hit.
PF09179. TilS. 1 hit.
PF11734. TilS_C. 1 hit.
[Graphical view]
SMARTiSM00977. TilS_C. 1 hit.
[Graphical view]
SUPFAMiSSF56037. SSF56037. 1 hit.
TIGRFAMsiTIGR02433. lysidine_TilS_C. 1 hit.
TIGR02432. lysidine_TilS_N. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiTILS_ECOLI
AccessioniPrimary (citable) accession number: P52097
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: November 2, 2016
This is version 135 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
  4. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.